RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy8300
(256 letters)
>2pff_B Fatty acid synthase subunit beta; fatty acid synthase,
acyl-carrier-protein, beta-ketoacyl RED beta-ketoacyl
synthase, dehydratase; 4.00A {Saccharomyces cerevisiae}
Length = 2006
Score = 48.9 bits (116), Expect = 8e-07
Identities = 56/328 (17%), Positives = 96/328 (29%), Gaps = 123/328 (37%)
Query: 2 FPLKIDNVSSVSLLQ--H-----HSSTESP-------RGDLGFIHAFVAALSVIVVSELG 47
PL + ++Q H +P +G G V A+ ++E
Sbjct: 238 CPL-------IGVIQLAHYVVTAKLLGFTPGELRSYLKGATGHSQGLVTAV---AIAETD 287
Query: 48 D-KTFFIAAIMAMRHPRVTVFIG----------AIAALALMTKFFHHE-----ML----L 87
++FF++ A+ V FIG ++ L ++E ML L
Sbjct: 288 SWESFFVSVRKAIT---VLFFIGVRCYEAYPNTSLPPSILEDSLENNEGVPSPMLSISNL 344
Query: 88 DKVYVQCT---FYTY-------------SPQVLVLSGAFDMAANIIPRIWTYYISTVLFI 131
+ VQ ++ + LV+SG P+ L+
Sbjct: 345 TQEQVQDYVNKTNSHLPAGKQVEISLVNGAKNLVVSGP--------PQ--------SLY- 387
Query: 132 IFGLKMLREGYKMSPNEGQEE-----------------------------LEEVQSDLRK 162
GL + K Q + + DL K
Sbjct: 388 --GLNLTLRKAKAPSGLDQSRIPFSERKLKFSNRFLPVASPFHSHLLVPASDLINKDLVK 445
Query: 163 RDDEFEKEALT---GDVESGKSYQAQTISLLSRVVIQAFTLTFLAEWG--DRSQLTTIIL 217
+ F + + D G + + S+ R+V L +W + + T I+
Sbjct: 446 NNVSFNAKDIQIPVYDTFDGSDLRVLSGSISERIVDCIIRLP--VKWETTTQFKATHILD 503
Query: 218 AAREDVYGVTLGGVLGHSLC--TGLAVI 243
G+ GVL H TG+ VI
Sbjct: 504 FGPGGASGL---GVLTHRNKDGTGVRVI 528
Score = 46.6 bits (110), Expect = 4e-06
Identities = 42/248 (16%), Positives = 64/248 (25%), Gaps = 91/248 (36%)
Query: 31 IHAFVAALSVIVVSELGDKTFFIAAIMAMRHPRVTVFIGAIAALALMTKFFHHEMLLDKV 90
IHA A L + L I I A + + F +
Sbjct: 101 IHALAAKLLQENDTTLVKTKELIKN--------------YITARIMAKRPFDKK------ 140
Query: 91 YVQCTFYTYSPQVLVLSGAFDMAANIIPRIWTYYISTVLFIIFG--------LKMLREGY 142
S L + A + IFG + LR+ Y
Sbjct: 141 ---------SNSAL-FRAVGEGNAQL-------------VAIFGGQGNTDDYFEELRDLY 177
Query: 143 KMSP-------NEGQEELEEVQSDLRKRDDEFEK-----EALTG-DVESGKSYQAQTISL 189
+ E L E+ + F + E L K Y L
Sbjct: 178 QTYHVLVGDLIKFSAETLSELIRTTLDAEKVFTQGLNILEWLENPSNTPDKDY------L 231
Query: 190 LSRVVIQAFTLTFLAEWGDRSQLTTIILAAREDVYGVT-------LGGVLGHSLCTGLAV 242
LS + + L + QL ++ A+ + G T L G GH +
Sbjct: 232 LSIPI--SCPLIGVI------QLAHYVVTAK--LLGFTPGELRSYLKGATGH----SQGL 277
Query: 243 IGGRFIAQ 250
+ IA+
Sbjct: 278 VTAVAIAE 285
Score = 41.6 bits (97), Expect = 2e-04
Identities = 33/191 (17%), Positives = 54/191 (28%), Gaps = 76/191 (39%)
Query: 85 MLLDKVYVQCTFYTYSPQVLVLSGAFDMAANIIPRIWTYYIS------------TVLFII 132
M +D Y S ++ A N TY S T+ F
Sbjct: 1631 MGMD-------LYKTSK---AAQDVWNRADNHFKD--TYGFSILDIVINNPVNLTIHFGG 1678
Query: 133 FGLKMLREGY-KM---SPNEGQEELEEVQSDLRKRDDE--FE--KEALTGDVESGKSYQA 184
K +RE Y M + +G+ + E++ ++ + F K L+
Sbjct: 1679 EKGKRIRENYSAMIFETIVDGKLKTEKIFKEINEHSTSYTFRSEKGLLS----------- 1727
Query: 185 QT------ISLLSRVVIQAFTLTFLAEWGDRSQLTTIILAAREDVYGVTLGGVLGHSLCT 238
T ++L+ + + L G D GHSL
Sbjct: 1728 ATQFTQPALTLMEKAAFED-----LKSKGLIP----------ADAT------FAGHSL-- 1764
Query: 239 G----LAVIGG 245
G LA +
Sbjct: 1765 GEYAALASLAD 1775
Score = 35.4 bits (81), Expect = 0.019
Identities = 24/115 (20%), Positives = 36/115 (31%), Gaps = 32/115 (27%)
Query: 99 YSPQVLVLS-GAFDMAANIIPRIWTYYISTVLFIIFGLKMLREGYKMSPNEGQEELEEVQ 157
YS + L LS G+ + + T F F L+E + E E
Sbjct: 4 YSTRPLTLSHGSLEH---------VLLVPTASF--FIASQLQEQFNKILPEPTEGFAA-- 50
Query: 158 SDLRKRDDEFEKEA---------LTGDVESGKSYQAQTISLLSRVVIQAFTLTFL 203
DDE A ++ VE K Q +L + + F +L
Sbjct: 51 ------DDEPTTPAELVGKFLGYVSSLVEPSK--VGQFDQVL-NLCLTEFENCYL 96
Score = 30.0 bits (67), Expect = 0.82
Identities = 29/159 (18%), Positives = 50/159 (31%), Gaps = 51/159 (32%)
Query: 22 ESPRGDLGFIHAF----VAALSVIVVSELGDKTFFIAAIMAMRHPRVTVFIG-------A 70
S +G L F + + +L K P F G A
Sbjct: 1720 RSEKGLL-SATQFTQPALTLMEKAAFEDLKSKGLI---------PADATFAGHSLGEYAA 1769
Query: 71 IAALA-LMTKFFHHEMLLDKVYVQ-CTFYTYSPQVLVLSGAFDMAANIIPRIWTYYISTV 128
+A+LA +M+ E L++ V+ + T P+ + + M A I P
Sbjct: 1770 LASLADVMS--I--ESLVEVVFYRGMTMQVAVPRDELGRSNYGMIA-INPG--------- 1815
Query: 129 LFIIFGLKMLREGYKMSPNEGQEELEEVQSDLRKRDDEF 167
+++ + QE L+ V + KR
Sbjct: 1816 --------------RVAASFSQEALQYVVERVGKRTGWL 1840
>1vt4_I APAF-1 related killer DARK; drosophila apoptosome, apoptosis,
programmed cell death; HET: DTP; 6.90A {Drosophila
melanogaster} PDB: 3iz8_A*
Length = 1221
Score = 34.4 bits (78), Expect = 0.039
Identities = 28/147 (19%), Positives = 47/147 (31%), Gaps = 37/147 (25%)
Query: 84 EMLLDKVYVQCTFYTYSPQVLVLSG--------AFDMAANIIPRIWTYYISTVLFIIFGL 135
+L K Y C +LVL AF+++ I+ + T + F+
Sbjct: 236 RLLKSKPYENC--------LLVLLNVQNAKAWNAFNLSCKIL--LTTRFKQVTDFLSAAT 285
Query: 136 KMLREGYKMSPNEGQEELEEVQSD-LRKRDDEFEKEALTGDVESGKSYQAQTISLLSRVV 194
S +E++ + L R + +E LT + +
Sbjct: 286 TTHISLDHHSMTLTPDEVKSLLLKYLDCRPQDLPREVLT-------------TNPRRLSI 332
Query: 195 IQAFTLTFLAEWG-----DRSQLTTII 216
I LA W + +LTTII
Sbjct: 333 IAESIRDGLATWDNWKHVNCDKLTTII 359
Score = 31.4 bits (70), Expect = 0.32
Identities = 42/253 (16%), Positives = 75/253 (29%), Gaps = 83/253 (32%)
Query: 2 FPLKIDNV---SSV-SLLQHHSSTESPRGDLGFIHAFVAALSVIVVSELGDKTFFIAAIM 57
FP + + + SL+ +VV++L + +
Sbjct: 381 FP---PSAHIPTILLSLIWFDVIKSDVM---------------VVVNKLHKYS------L 416
Query: 58 AMRHP-RVTVFIGAIAALALMTK----FFHHEMLLDKVYVQCTFYTYSPQVLVLSGAFDM 112
+ P T+ I +I L L K + H ++D + TF + L
Sbjct: 417 VEKQPKESTISIPSIY-LELKVKLENEYALHRSIVDHYNIPKTFDSDDLIPPYLDQ---- 471
Query: 113 AANIIPRIWTYYISTVLFIIFGLKMLREGYKMSPNEGQEELEEVQS---DLR----K-RD 164
Y+ S I G+ + E E + + D R K R
Sbjct: 472 ----------YFYS---HI---------GHHLKNIEHPERMTLFRMVFLDFRFLEQKIRH 509
Query: 165 DEFEKEA------LTGDVESGKSYQAQTISLLSRVVIQAFTLTFLAEWGD---RSQLTTI 215
D A ++ K Y R+V L FL + + S+ T +
Sbjct: 510 DSTAWNASGSILNTLQQLKFYKPYICDNDPKYERLVNA--ILDFLPKIEENLICSKYTDL 567
Query: 216 I----LAAREDVY 224
+ +A E ++
Sbjct: 568 LRIALMAEDEAIF 580
>3lvg_D LCB, clathrin light chain B; SELF assembly, coated PIT, cytoplasmic
vesicle, membrane, Ca structural protein; 7.94A {Bos
taurus}
Length = 190
Score = 32.1 bits (72), Expect = 0.13
Identities = 8/35 (22%), Positives = 16/35 (45%), Gaps = 4/35 (11%)
Query: 136 KMLREGYKMSPNEGQEELEEVQSDLRKRDDEFEKE 170
K L E + E++E+ + + R D F ++
Sbjct: 118 KDLEEWNQ----RQSEQVEKNKINNRIADKAFYQQ 148
Score = 29.0 bits (64), Expect = 1.0
Identities = 10/52 (19%), Positives = 24/52 (46%), Gaps = 9/52 (17%)
Query: 135 LKMLREGYKMSPNEGQEELEEVQSDLRKRDDEFEKEALTGDVESG-KSYQAQ 185
++ RE E ++ L+E+ + + + E+ ++A D+E + Q
Sbjct: 87 IRKWRE-------EQRKRLQELDAASKVMEQEWREKAKK-DLEEWNQRQSEQ 130
>1qzv_F Plant photosystem I: subunit PSAF; photosynthesis,plant
photosynthetic reaction center, peripheral antenna; HET:
CL1 PQN; 4.44A {Pisum sativum} SCOP: i.5.1.1
Length = 154
Score = 29.9 bits (66), Expect = 0.50
Identities = 9/31 (29%), Positives = 16/31 (51%), Gaps = 2/31 (6%)
Query: 148 EGQEELEEVQSDLRK-RDDEFEKEALTGDVE 177
E Q L+++Q+ L+ DD A+ +E
Sbjct: 18 EKQA-LKKLQASLKLYADDSAPALAIKATME 47
>2v71_A Nuclear distribution protein NUDE-like 1; developmental protein,
nuclear protein, neurogenesis, cytosk LIS1 binding,
differentiation; 2.24A {Rattus norvegicus}
Length = 189
Score = 29.3 bits (65), Expect = 0.95
Identities = 13/36 (36%), Positives = 18/36 (50%)
Query: 135 LKMLREGYKMSPNEGQEELEEVQSDLRKRDDEFEKE 170
K L YK S E ++EL E Q R+ + E E +
Sbjct: 15 WKELSMKYKQSFQEARDELVEFQEGSRELEAELEAQ 50
>3tl2_A Malate dehydrogenase; center for structural genomics of
infectious diseases, csgid dehydrogenase,
oxidoreductase, citric acid cycle; 1.70A {Bacillus
anthracis}
Length = 315
Score = 28.2 bits (64), Expect = 2.3
Identities = 11/36 (30%), Positives = 17/36 (47%), Gaps = 4/36 (11%)
Query: 57 MAMRHPRVTV----FIGAIAALALMTKFFHHEMLLD 88
M ++ +V+V F GA A L K +L+D
Sbjct: 4 MTIKRKKVSVIGAGFTGATTAFLLAQKELADVVLVD 39
>2hjr_A Malate dehydrogenase; malaria, structural genomics, structural
genomics consortium, SGC, oxidoreductase; HET: CIT APR;
2.20A {Cryptosporidium parvum}
Length = 328
Score = 27.9 bits (63), Expect = 3.7
Identities = 7/36 (19%), Positives = 14/36 (38%), Gaps = 4/36 (11%)
Query: 57 MAMRHPRVTV----FIGAIAALALMTKFFHHEMLLD 88
+ ++++ IG+ AL L K + D
Sbjct: 10 TVIMRKKISIIGAGQIGSTIALLLGQKDLGDVYMFD 45
>3kyp_A Pfnaps, nucleosome assembly protein; histone recognition,
chaperone; 2.80A {Plasmodium falciparum}
Length = 193
Score = 26.6 bits (58), Expect = 6.0
Identities = 5/33 (15%), Positives = 16/33 (48%)
Query: 151 EELEEVQSDLRKRDDEFEKEALTGDVESGKSYQ 183
++ E++Q D+ + D + E + + + +
Sbjct: 3 QDFEDIQKDIEQLDIKCAHEQMNIQKQYDEKKK 35
>3mzy_A RNA polymerase sigma-H factor; PSI, MCSG, structural genomics,
midwest center for structura genomics, protein structure
initiative; 2.50A {Fusobacterium nucleatum subsp}
Length = 164
Score = 26.3 bits (58), Expect = 8.5
Identities = 13/34 (38%), Positives = 19/34 (55%), Gaps = 1/34 (2%)
Query: 150 QEELEEVQSDLRKRDDEFEKEALTGDVESGKSYQ 183
+EE+EE + +FEKE LT + G SY+
Sbjct: 96 KEEIEEFKKFSENNFSKFEKEVLTYLIR-GYSYR 128
>2d0i_A Dehydrogenase; structural genomics, NPPSFA, national project
protein structural and functional analyses; 1.95A
{Pyrococcus horikoshii}
Length = 333
Score = 26.8 bits (60), Expect = 8.6
Identities = 15/73 (20%), Positives = 25/73 (34%), Gaps = 20/73 (27%)
Query: 186 TISLL---SRVVIQAFTLTFLAEWGDRSQLTTIILAAREDVYGVTLGGVLGHSLCTGLAV 242
T+ L+ R + A EW + E +YG +G +
Sbjct: 105 TVGLIINLMRKIHYADKFIRRGEW-ESHAKIWTGFKRIESLYGKKVG------------I 151
Query: 243 IG----GRFIAQR 251
+G G+ IA+R
Sbjct: 152 LGMGAIGKAIARR 164
>3ahn_A Oligopeptidase, PZ peptidase A; hydrolase, hydrolase-hydrolase
inhibitor complex; HET: 3A1; 1.80A {Geobacillus SP} PDB:
3ahm_A* 3aho_A* 2h1n_A 2h1j_A
Length = 564
Score = 26.6 bits (59), Expect = 9.4
Identities = 6/49 (12%), Positives = 15/49 (30%), Gaps = 11/49 (22%)
Query: 135 LKMLREGYKMSPNE-----------GQEELEEVQSDLRKRDDEFEKEAL 172
L + R+G E ++ V + + + ++L
Sbjct: 516 LTLCRQGGSKPFTELVRVANLISPFEDGCVQSVVGGIEGWLNSVDDQSL 564
Database: pdb70
Posted date: Sep 4, 2012 3:40 AM
Number of letters in database: 6,701,793
Number of sequences in database: 27,921
Lambda K H
0.325 0.138 0.398
Gapped
Lambda K H
0.267 0.0675 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 4,065,559
Number of extensions: 248958
Number of successful extensions: 773
Number of sequences better than 10.0: 1
Number of HSP's gapped: 767
Number of HSP's successfully gapped: 31
Length of query: 256
Length of database: 6,701,793
Length adjustment: 91
Effective length of query: 165
Effective length of database: 4,160,982
Effective search space: 686562030
Effective search space used: 686562030
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 15 ( 7.0 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.6 bits)
S2: 56 (25.5 bits)